genome.fa.s8053.2.7.7.80.10.50.1000.19.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   

This is table  19  of  32  ( 3749 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3695061--3695331	36	7.6	35	76	14	211	45	8	2	43	1.48
3695061--3695330	73	3.8	69	76	12	219	45	8	2	43	1.48
3695703--3696363	85	7.8	85	87	1	795	25	17	21	35	1.95
3696439--3696605	86	1.9	86	87	0	244	25	20	24	29	1.99
3723559--3723790	36	6.4	36	88	1	313	35	24	19	20	1.96
3723559--3723823	36	7.4	35	84	4	282	35	23	19	21	1.96
3723559--3723823	108	2.5	108	83	4	347	35	23	19	21	1.96
3724185--3724633	51	8.8	51	84	6	488	32	19	24	23	1.98
3724610--3725067	53	8.6	53	78	10	334	31	14	25	28	1.95
3724244--3725216	51	18.6	52	75	12	279	32	16	25	25	1.97
3724690--3725044	158	2.2	156	81	8	389	30	14	27	27	1.95
3725836--3725908	28	2.6	28	100	0	146	19	43	12	24	1.85
3730658--3730759	35	3.0	34	87	4	145	39	15	4	40	1.69
3730703--3730994	145	2.0	147	98	1	570	33	17	16	32	1.92
3735215--3735327	42	2.7	42	89	5	176	22	15	17	44	1.87
3735517--3735553	19	1.9	19	88	0	56	43	0	0	56	0.99
3735505--3735560	28	2.0	27	86	10	78	44	0	0	55	0.99
3735514--3735560	14	3.4	14	76	5	51	48	0	0	51	1.00
3735509--3735578	28	2.4	28	79	13	72	47	2	0	50	1.16
3735815--3735863	18	2.7	18	90	0	71	48	0	4	46	1.20
3735801--3735871	18	4.2	17	74	13	58	47	1	2	47	1.25
3736047--3736097	15	3.4	15	86	0	75	39	13	5	41	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3736035--3736103	30	2.4	29	90	4	104	33	15	5	44	1.71
3736058--3736103	15	3.1	15	87	0	74	30	15	6	47	1.70
3737776--3737811	4	9.2	4	87	6	56	75	2	0	22	0.94
3737776--3737811	16	2.3	15	95	4	63	75	2	0	22	0.94
3742926--3742995	23	3.0	23	78	2	77	18	22	24	34	1.96
3746259--3746299	21	2.0	21	85	0	55	29	29	21	19	1.98
3747997--3748060	23	2.8	23	79	9	85	17	25	25	32	1.96
3751381--3751422	22	1.9	22	85	0	57	30	28	21	19	1.97
3753130--3753185	23	2.4	23	87	0	76	19	26	25	28	1.99
3755846--3756220	197	1.9	199	94	1	664	32	15	12	40	1.84
3760594--3760639	15	3.1	15	73	17	51	4	32	0	63	1.14
3763892--3763942	25	2.0	27	85	14	72	52	1	5	39	1.37
3765602--3766124	261	2.0	262	98	1	1023	32	14	15	38	1.87
3766450--3766739	30	10.0	29	75	9	200	38	8	2	51	1.44
3766665--3766721	22	2.5	23	83	11	64	42	5	0	52	1.24
3766665--3766721	23	2.5	23	88	5	80	42	5	0	52	1.24
3766757--3766876	30	4.0	31	78	6	111	55	1	2	40	1.23
3766791--3766942	29	5.2	29	79	12	166	53	1	4	40	1.30
3766791--3766940	30	5.1	30	78	8	155	53	1	4	40	1.30
3766791--3766948	59	2.7	58	80	9	185	53	1	5	40	1.31
3767150--3767240	36	2.5	36	94	0	155	30	18	36	14	1.91
3767252--3767300	13	3.8	13	83	5	64	20	51	16	12	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3773693--3773875	37	5.3	37	63	15	129	45	13	14	26	1.82
3773730--3773974	31	7.3	31	64	17	105	48	11	13	26	1.76
3773591--3773988	68	5.9	68	89	4	601	47	11	12	28	1.76
3778914--3778949	16	2.2	17	90	9	58	47	22	5	25	1.73
3783323--3783351	14	2.0	15	93	6	51	58	6	6	27	1.50
3784516--3784540	2	12.5	2	100	0	50	52	0	0	48	1.00
3784708--3784756	4	12.8	4	82	8	66	24	4	71	0	1.03
3784708--3784756	12	4.2	12	89	10	75	24	4	71	0	1.03
3791832--3791878	17	2.9	16	85	14	62	27	0	0	72	0.85
3792064--3792416	181	1.9	182	81	6	428	32	9	12	45	1.74
3794891--3795274	191	2.0	192	82	7	469	35	11	13	38	1.82
3795607--3795759	2	78.0	2	69	11	84	44	0	50	4	1.27
3795612--3795758	12	12.7	12	72	11	101	43	0	51	4	1.28
3795694--3795769	14	5.6	14	73	9	59	44	1	48	5	1.33
3795736--3795774	14	2.6	15	84	12	53	48	2	43	5	1.38
3795694--3795797	54	1.9	54	81	11	124	46	1	48	3	1.31
3799366--3799421	25	2.2	25	83	0	76	58	7	1	32	1.35
3802854--3802890	19	1.9	19	88	0	56	70	5	2	21	1.20
3806105--3806158	24	2.3	24	93	3	92	11	24	24	40	1.87
3809718--3809767	15	3.4	15	71	15	50	46	0	34	20	1.51
3809708--3809767	29	2.1	29	93	0	102	48	0	33	18	1.48
3811041--3811115	32	2.4	31	88	4	105	25	17	20	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3815575--3815650	32	2.4	31	89	10	118	25	21	22	31	1.98
3829451--3829937	229	2.1	228	96	0	884	44	8	7	39	1.62
3830196--3830242	20	2.4	19	89	10	76	55	10	17	17	1.69
3830377--3830423	20	2.4	19	82	10	67	53	10	17	19	1.72
3829992--3830456	181	2.6	183	90	1	702	42	14	16	26	1.87
3830386--3830428	20	2.3	19	88	11	63	51	11	16	20	1.75
3832656--3832720	21	3.1	21	79	0	76	38	13	30	16	1.88
3832754--3832819	33	2.0	33	90	0	105	28	0	48	22	1.51
3834604--3834652	19	2.6	19	93	0	80	30	2	10	57	1.43
3834771--3835542	198	3.9	200	96	1	1394	36	15	16	30	1.91
3839927--3839990	24	2.6	25	75	5	76	35	9	14	40	1.78
3840272--3840317	22	2.1	22	84	8	58	41	10	8	39	1.71
3840335--3840407	23	3.2	23	88	0	101	34	4	21	39	1.73
3840763--3840823	23	2.7	23	89	0	86	37	4	19	37	1.74
3840784--3840835	23	2.3	23	86	6	70	34	3	19	42	1.69
3840132--3841067	428	2.2	429	95	0	1698	40	7	11	39	1.70
3841261--3841297	18	2.1	18	89	0	56	32	5	10	51	1.60
3841253--3841299	24	2.0	24	86	0	67	34	4	14	46	1.64
3841555--3841641	39	2.2	39	83	0	120	48	18	13	19	1.81
3842057--3842133	23	3.2	24	87	7	104	36	3	20	38	1.71
3842127--3842170	21	2.0	22	86	4	63	29	13	9	47	1.74
3843274--3843325	7	7.4	7	97	0	86	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3862973--3863052	29	2.7	30	81	9	94	21	15	7	56	1.63
3862995--3863051	30	1.9	29	86	10	80	22	12	5	59	1.53
3866728--3866777	24	2.1	24	88	0	73	34	20	20	26	1.96
3870545--3870580	9	4.0	9	92	0	54	0	55	0	44	0.99
3872459--3872540	44	1.9	41	87	7	119	34	6	26	32	1.81
3872461--3872551	19	4.4	20	74	17	96	37	5	26	30	1.79
3872956--3873033	40	2.0	40	86	0	111	43	21	14	20	1.87
3873047--3873213	21	8.2	20	68	14	76	37	22	16	22	1.93
3873053--3873152	40	2.5	40	91	0	155	38	20	17	25	1.93
3873083--3873242	61	2.6	61	84	3	189	38	20	16	25	1.92
3873162--3873245	21	4.2	19	72	11	78	39	21	14	25	1.91
3873201--3873251	19	2.5	20	87	6	68	39	17	15	27	1.90
3873210--3873258	19	2.9	16	77	16	62	42	12	14	30	1.82
3879162--3879196	18	1.9	18	88	0	52	40	8	0	51	1.33
3880452--3880495	21	2.1	21	83	8	54	31	0	2	65	1.05
3900532--3900587	17	3.4	17	68	22	55	33	7	0	58	1.25
3900520--3900588	33	2.1	34	97	2	131	33	5	0	60	1.20
3900574--3900647	32	2.5	29	77	14	78	41	6	4	47	1.49
3912495--3912549	20	2.6	20	83	11	65	23	29	29	18	1.98
3912495--3912553	23	2.8	21	87	7	75	22	32	27	18	1.97
3917878--3917963	32	2.7	32	79	0	82	30	15	22	32	1.94
3918052--3918147	34	2.8	34	82	0	129	35	19	10	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3918268--3918351	40	2.1	41	90	2	134	29	11	16	41	1.84
3919028--3919217	92	2.0	94	88	4	287	26	26	20	26	1.99
3921836--3921895	23	2.6	23	82	12	70	63	1	0	35	1.05
3926015--3926047	2	16.0	2	93	6	57	48	3	0	48	1.17
3928336--3928392	29	2.0	29	93	6	98	66	5	7	21	1.36
3936966--3937001	17	2.1	17	100	0	72	44	11	0	44	1.39
3937751--3937801	2	26.0	2	90	4	77	50	0	1	47	1.12
3949313--3949345	2	16.5	2	100	0	66	48	0	0	51	1.00
3956335--3956367	14	2.4	14	95	5	59	45	15	12	27	1.81
3958788--3958819	14	2.1	16	88	11	50	46	6	6	40	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32